Info • Herpotrichia sp. AK1299 v1.0


[March 2018] The Herpotrichia sp. AK1299 genome was sequenced with PacBio, assembled with Falcon, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.

Summary statistics for the Herpotrichia sp. AK1299 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 52.40
Sequencing read coverage depth 100.51x
# of contigs 36
# of scaffolds 36
# of scaffolds >= 2Kbp 36
Scaffold N50 12
Scaffold L50 (Mbp) 1.99
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 3.01, 2.53, 2.52

ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 36829 36264 98.5%
Ests est.fasta 98337519 98218600 99.9%

Gene Models FilteredModels1
length (bp) of: average median
gene 1816 1586
transcript 1662 1446
exon 582 368
intron 85 57
protein length (aa) 475 392
exons per gene 2.86 2
# of gene models 15663


Jana U'Ren, University of Arizona, AZ

Betsy Arnold, University of Arizona, AZ


The work conducted by the U.S. Department of Energy Joint Genome Institute, a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231.